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EMDB Talks & tutorials
Below are recordings of EMPIAR-related talks and tutorials. These videos will be listed here as they become available. If you have any comments on the videos, or suggestions for additional topics, please contact the EMDB helpdesk. Some of the EMPIAR tutorials and talks may also be of interest.
Tutorials
Following the launch of the new EMDB website on 21 July 2021, we released a number of short videos that demonstrate some of its key features (homepage, basic search, entry pages, advanced search). More videos will be listed here as they become available.
EMDB Website New Features - 2022
Recorded by Jack Turner on October, 2022 - Duration: 3:29
EMDB Validation Analysis Pages
Recorded by Jack Turner on October, 2022 - Duration: 5:07
Searching EMPIAR using EMDB Search
Recorded by Jack Turner on November, 2021 - Duration: 4:39
Introducing the new EMDB homepage
Recorded by Jack Turner on July, 2021 - Duration: 2:06
Introducing the new EMDB basic search
Recorded by Jack Turner on July, 2021 - Duration: 3:44
Introducing the new EMDB entry pages
Recorded by Jack Turner on July, 2021 - Duration: 2:17
Introducing the new EMDB advanced search
Recorded by Jack Turner on July, 2021 - Duration: 2:22
Talks
Whither Structural Biology?
By Gerard Kleywegt at the 2022 CCP4 Study Weekend (January 2022). Duration: 23:31
Community recommendations on validating cryo-EM models and data
By Gerard Kleywegt at the IUCr XXV Congress 2021 (Aug 2021). Duration: 25:35
What’s new in EMDB and EMPIAR
By Ardan Patwardhan at the CCP-EM Spring Symposium 2021 (May, 2021). Duration: 22:14
EM Validation Analysis at EMDB
By Zhe Wang at the "Cryo-EM Validation in the Age of SARS-CoV-2: Methods, Tools and Applications" Symposium (Nov, 2020). Duration: 13:51
Strudel - Model-dependent map-feature validation and application to EM SARS-Cov-2 Structures
By Andrei Istrate at the "Cryo-EM Validation in the Age of SARS-CoV-2: Methods, Tools and Applications" Symposium (Nov, 2020). Duration: 12:34
Quick links
Recent Entries
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Yeast RNA polymerase I elongation complex stalled by an apurinic site, closed state
Yeast RNA polymerase I elongation complex stalled by an apurinic site with the C-terminal of A12 in the funnel
Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at E-site
Yeast RNA polymerase I elongation complex stalled by an apurinic site, 12-subunit
snR30 snoRNP - State 1 - Utp23-Krr1-deltaC3 - 3' HACA - local refinement
Yeast RNA polymerase I elongation complex stalled by an apurinic site
Yeast RNA polymerase I elongation complex stalled by an apurinic site, pre-translocation state
Cryo-EM structure of MBP homo-dimer assembled by homo Di-Gluebody - MBP local refinement
Stalled 90S - Utp23-Krr1-deltaC3 - Head-Kre33 module - local refinement
Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the baseplate complex in extended state applied 6-fold symmetry.
Mouse mitoribosome large subunit assembly intermediate (without uL16m) bound to MRM3 dimer and the MALSU-L0R8F8-mt-ACP complex, State A3 (SAMC knock out)
Yeast RNA polymerase I elongation complex stalled by an apurinic site bound to nucleotide analog AMPCPP at A-site
Mouse mitoribosome large subunit assembly intermediate bound to NSUN4, MTERF4 and the MALSU1-L0R8F8-mtACP complex, State C2 (SAMC knock-out)
Cryo-EM structure of the Plastid-encoded RNA polymerase from Sinapis alba
snR30 snoRNP - State 1 - Utp23-Krr1-deltaC3 - Consensus refinement
Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the baseplate complex in extended state applied 3-fold symmetry.
Cryo electron tomogram of Streptomyces coelicolor - ScoDelta4242 complemented membrane protein CisA strain - Ghost cells
Cryo electron tomogram of Streptomyces coelicolor - ScoDelta4242 complemented membrane protein CisA strain - Intact hyphae
Cryo-EM structure of the Toxoplasma gondii respiratory chain complex III inhibited by ELQ-300
Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, the cap portion in extended state.
Stalled 90S - Utp23-Krr1-deltaC3 - Nop14 module - local refinement
Mouse mitochondrial large subunit assembly intermediate in complex with MRM2 dimer with uL16m bound (SAMC Knock-out)
Escherichia phage Paracelsus (Bas36) baseplate, proximal tail fiber and tail.
Mouse mitoribosome large subunit assembly intermediate (without uL16m) bound to MRM3-dimer, DDX28 and the MALSU-L0R8F8-mt-ACP complex, State A1 (SAMC knock-out)
Mouse mitoribosome large subunit assembly intermediate bound to NSUN4, METRF4, MRM2, GTPBP7 and MALSU1-L0R8F8-mt-ACP complex, State D (SAMC knock-out)
Cryo electron tomogram of Streptomyces coelicolor - ScoDelta4242 membrane protein CisA mutant - Ghost cells
Yeast RNA polymerase I elongation complex stalled by an apurinic site, 11-subunit
snR30 snoRNP - State 1 - Utp23-Krr1-deltaC3 - Platform module - local refinement
Mouse mitoribosome large subunit assembly intermediate bound to NSUN4, METRF4, GTPBP7 and the MALSU1-L0R8F8-mt-ACP complex, State C1 (SAMC knock-out)
Cryo electron tomogram of Streptomyces coelicolor - ScoDelta4242 membrane protein CisA mutant - Intact hyphae
Cryo-EM map of human XPR1 in presence of inorganic phosphate and phytic acid
SpCas9 with 17-bp R-loop containing 2 terminal mismatches (State IV - product)
Cryo-EM structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site 2'-deoxy-A76-fMEAAAKC-peptidyl-tRNAcys at 2.13A resolution
Cryo-EM structure of human SRCAP-nucleosome complex in the encounter state (composite structure)
SpCas9 with 17-bp R-loop containing 2 terminal mismatches (State I - pre-activation)
Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin precursor 5.3
Cryo-EM structure of KCa2.2_I/calmodulin channel in complex with rimtuzalcap
Cryo-EM structure of human SRCAP-nucleosome complex in the pre-engaged state (composite structure)
Cryo-EM structure of the human SRCAP complex in the unbound state (composite structure)
Cryo-EM structure of the reconstituted TRRAP lobe of the human TIP60 complex (composite structure)
Focused refinement map on C-terminal half of LRRK2 bound to RN277 (CORB-Kinase-WD40 domains)
SpCas9 with 17-bp R-loop containing 2 terminal mismatches (State III - checkpoint)
Cryo-EM structure of KCa3.1/calmodulin channel in complex with NS309
Structure of R2 retrotransposon protein from Platysternon megacephalum after second strand nicking
Consensus map of the autoinhibitory unliganded CD163 trimer (map A)
Focused refinement map on C-terminal half of LRRK2 (RoC-CORA domains)
Rhesus RHA10.01 Fab in complex with HIV-1 Env BG505 DS-SOSIP trimer
Cryo-EM structure of KCa2.2_II/calmodulin channel in complex with rimtuzalcap
Structure of the C-terminal half of LRRK2 bound to RN277 (Type-II inhibitor)
Composite map of the autoinhibitory unliganded CD163 trimer (map F)
Cryo-Electron Microscopy of BfpB Reveals a Type IVb Secretin Multimer Sufficient to Accommodate the Exceptionally Wide Bundle-Forming Pilus
Cryo-EM structure of KCa2.2/calmodulin channel in complex with NS309
Cryo-EM structure of human SRCAP-nucleosome complex in the partially-engaged state (composite structure)
SpCas9 with 17-bp R-loop containing 2 terminal mismatches (State V - dissociated)
Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin candidate 2, open conformation
Cryo-EM structure of the TRRAP lobe of the native human TIP60 complex (composite structure)
Structure of R2 retrotransposon protein from Taeniopygia guttata initiating target-primed reverse transcription
Cryo-EM structure of the RuvBL lobe of the native human TIP60 complex (composite structure)
Structure of R2 retrotransposon protein from Platysternon megacephalum initiating target-primed reverse transcription
Cryo-EM structure of human SRCAP-nucleosome complex in the fully-engaged state (composite structure)
Cryo-EM structure of the reconstituted RuvBL lobe of the human TIP60 complex (composite structure)
Imidazole glycerol phosphate dehydratase from Mycobacterium tuberculosis, apo structure
Structure of E.coli ribosome in complex with an engineered arrest peptide and trigger factor
The consensus map of the Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The structure of the Lhcb4.1-CP47 from Lhcb4.1-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA (Class 1)
1.8 A resolution structure of the Photosystem I assembly intermediate lacking stromal subunits.
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA (Class 2b)
The structure of Lhcb8-LHCII-CP26 from Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The consensus map of the Lhcb4.1-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA (Class 2c)
Imidazole glycerol phosphate dehydratase from Mycobacterium tuberculosis, in complex with aminotriazole
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA (Class 2d)
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA with substrate tRNA and S-adenosyl homocysteine (SAH)
Imidazole glycerol phosphate dehydratase from Mycobacterium tuberculosis, apo structure
Structure of E.coli ribosome in complex with an engineered arrest peptide
The structure of Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The structure of Lhcb4.1-LHCII-CP26 from Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The structure of the CS from Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA (Class 2a)
Cryo-EM structure of Lhcb4.1-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
The structure of the Lhcb8-CP47 from Lhcb8-C2S2 PSII-LHCII supercomplex from Arabidopsis thaliana
Extracellular region of the Vgamma9Vdelta2 TCR-engaged BTN3A1-BTN3A2-BTN2A1 complex (EMReady)
Cryo-EM structure of formate dehydrogenase from Rhodobacter aestuarii (RaFDH) with NAD+
The Cryo-EM structure of MPXV E5 in complex with ssDNA focused on primase and Zn binding domain
The Cryo-EM structure of MPXV E5 head-to-head double hexamer conformation
Cryo-EM structure of reduced form of formate dehydrogenase from Rhodobacter aestuarii (RaFDH) with NADH
Cryo-EM structure of the SE-PangolinCoV (MjHKU4r-CoV-1) RBD in complex with human DPP4
Raw consensus map of the HMBPP-primed BTN3A1-BTN3A2-BTN2A1 complex
The Cryo-EM structure of MPXV E5 in complex with ssDNA in intermediate state 3
The Cryo-EM structure of MPXV E5 in complex with ssDNA in intermediate state 1
TM/JM/B30.2 regions of the Vgamma9Vdelta2 TCR-engaged BTN3A1-BTN3A2-BTN2A1 complex (EMReady)
Extracellular region of the HMBPP-primed BTN3A1-BTN3A2-BTN2A1 complex (EMReady)
Cryo-EM structure of EU-HedgehogCoV (Erinaceus/VMC/DEU/2012) S-trimer in a locked-2 conformation
The Cryo-EM map of MPXV E5 in complex with ssDNA in intermediate state 4
Cryo-EM structure of CN-HedgehogCoV (HKU31/Erinaceus amurensis/China/2014) S-trimer in a locked-1 conformation
TM/JM/B30.2 regions of the HMBPP-primed BTN3A1-BTN3A2-BTN2A1 complex (EMReady)
Cryo-EM structure of BTN2A1 in complex with antagonist antibody TH002
Cryo-EM structure of the Vgamma9Vdelta2 TCR-engaged BTN3A1-BTN3A2-BTN2A1 complex
The Cryo-EM map of MPXV E5 in complex with ssDNA in intermediate state 2
Cryo-EM structure of HKU25-BatCoV S-trimer stabilized with 2P and x1 disulfide bond
Cryo-EM structure of the GD-BatCoV (BtCoV/Ii/GD/2014-422) RBD in complex with human DPP4
Raw consensus map of the Vgamma9Vdelta2 TCR-engaged BTN3A1-BTN3A2-BTN2A1 complex
CryoEM structure of a tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA
Cryo-EM structure of SA-BatCoV (Neoromicia/PML-PHE1/RSA/2011) S-trimer
Cryo-EM structure of CN-HedgehogCoV (HKU31/Erinaceus amurensis/China/2014) S-trimer in a locked-2 conformation
Cryo-EM structure of the HMBPP-primed BTN3A1-BTN3A2-BTN2A1 complex
Cryo-EM structure of the HMBPP-primed BTN3A1-BTN3A2-BTN2A1 in complex with agonist antibody TH001
The Cryo-EM map of MPXV E5 in complex with ssDNA in intermediate state 5
snR30 snoRNP - State 1 - Utp23-Krr1-deltaC3 - 5' HACA - local refinement
Omicron BA.1 Spike protein with neutralizing NTD specific mAb K501SP6
Yeast RNA polymerase I elongation complex stalled by an apurinic site, open state